opennlp.tools.formats

Class BioNLP2004NameSampleStream

java.lang.Object

opennlp.tools.formats.BioNLP2004NameSampleStream

All Implemented Interfaces:

ObjectStream<NameSample>

public class BioNLP2004NameSampleStream
extends Object
implements ObjectStream<NameSample>

Parser for the training files of the BioNLP/NLPBA 2004 shared task.

The data contains five named entity types: DNA, RNA, protein, cell_type and cell_line.

Data can be found on this web site:
http://www-tsujii.is.s.u-tokyo.ac.jp/GENIA/ERtask/report.html

Note: Do not use this class, internal use only!

Field Summary

Fields

Modifier and Type	Field and Description
static int	GENERATE_CELLLINE_ENTITIES
static int	GENERATE_CELLTYPE_ENTITIES
static int	GENERATE_DNA_ENTITIES
static int	GENERATE_PROTEIN_ENTITIES
static int	GENERATE_RNA_ENTITIES

Constructor Summary

Constructors

Constructor and Description
BioNLP2004NameSampleStream(InputStream in, int types)

Method Summary

Modifier and Type	Method and Description
void	close() Closes the ObjectStream and releases all allocated resources.
NameSample	read() Returns the next object.
void	reset() Repositions the stream at the beginning and the previously seen object sequence will be repeated exactly.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

GENERATE_DNA_ENTITIES

public static final int GENERATE_DNA_ENTITIES

See Also:

Constant Field Values

GENERATE_PROTEIN_ENTITIES

public static final int GENERATE_PROTEIN_ENTITIES

See Also:

Constant Field Values

GENERATE_CELLTYPE_ENTITIES

public static final int GENERATE_CELLTYPE_ENTITIES

See Also:

Constant Field Values

GENERATE_CELLLINE_ENTITIES

public static final int GENERATE_CELLLINE_ENTITIES

See Also:

Constant Field Values

GENERATE_RNA_ENTITIES

public static final int GENERATE_RNA_ENTITIES

See Also:

Constant Field Values

Constructor Detail

BioNLP2004NameSampleStream

public BioNLP2004NameSampleStream(InputStream in,
                                  int types)

Method Detail

read

public NameSample read()
                throws IOException

Description copied from interface: ObjectStream

Returns the next object. Calling this method repeatedly until it returns null will return each object from the underlying source exactly once.

Specified by:

read in interface ObjectStream<NameSample>

Returns:

the next object or null to signal that the stream is exhausted

Throws:

IOException

reset

public void reset()
           throws IOException,
                  UnsupportedOperationException

Description copied from interface: ObjectStream

Repositions the stream at the beginning and the previously seen object sequence will be repeated exactly. This method can be used to re-read the stream if multiple passes over the objects are required. The implementation of this method is optional.

Specified by:

reset in interface ObjectStream<NameSample>

Throws:

IOException

UnsupportedOperationException

close

public void close()
           throws IOException

Description copied from interface: ObjectStream

Closes the ObjectStream and releases all allocated resources. After close was called its not allowed to call read or reset.

Specified by:

close in interface ObjectStream<NameSample>

Throws:

IOException